I: pbuilder: network access will be disabled during build I: Current time: Sat Sep 17 02:08:43 +14 2022 I: pbuilder-time-stamp: 1663330123 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/bullseye-reproducible-base.tgz] I: copying local configuration I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [fastqtl_2.184+dfsg-7.dsc] I: copying [./fastqtl_2.184+dfsg.orig.tar.xz] I: copying [./fastqtl_2.184+dfsg-7.debian.tar.xz] I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/tmp/dpkg-verify-sig.6tBjXoD0/trustedkeys.kbx': General error gpgv: Signature made Wed Sep 11 20:20:12 2019 +14 gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./fastqtl_2.184+dfsg-7.dsc dpkg-source: info: extracting fastqtl in fastqtl-2.184+dfsg dpkg-source: info: unpacking fastqtl_2.184+dfsg.orig.tar.xz dpkg-source: info: unpacking fastqtl_2.184+dfsg-7.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying 01_Makefile_dynamic_hardenings.patch dpkg-source: info: applying 02_Replace_libtabix_by_libhts.patch dpkg-source: info: applying 03_Reproducible_builds.patch dpkg-source: info: applying cross.patch I: using fakeroot in build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/22138/tmp/hooks/D01_modify_environment starting debug: Running on codethink15-arm64. I: Changing host+domainname to test build reproducibility I: Adding a custom variable just for the fun of it... I: Changing /bin/sh to bash Removing 'diversion of /bin/sh to /bin/sh.distrib by dash' Adding 'diversion of /bin/sh to /bin/sh.distrib by bash' Removing 'diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by dash' Adding 'diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by bash' I: Setting pbuilder2's login shell to /bin/bash I: Setting pbuilder2's GECOS to second user,second room,second work-phone,second home-phone,second other I: user script /srv/workspace/pbuilder/22138/tmp/hooks/D01_modify_environment finished I: user script /srv/workspace/pbuilder/22138/tmp/hooks/D02_print_environment starting I: set BASH=/bin/sh BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:hostcomplete:interactive_comments:progcomp:promptvars:sourcepath BASH_ALIASES=() BASH_ARGC=() BASH_ARGV=() BASH_CMDS=() BASH_LINENO=([0]="12" [1]="0") BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") BASH_VERSINFO=([0]="5" [1]="1" [2]="4" [3]="1" [4]="release" [5]="aarch64-unknown-linux-gnu") BASH_VERSION='5.1.4(1)-release' BUILDDIR=/build BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' BUILDUSERNAME=pbuilder2 BUILD_ARCH=arm64 DEBIAN_FRONTEND=noninteractive DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all,-fixfilepath parallel=8' DIRSTACK=() DISTRIBUTION= EUID=0 FUNCNAME=([0]="Echo" [1]="main") GROUPS=() HOME=/var/lib/jenkins HOSTNAME=i-capture-the-hostname HOSTTYPE=aarch64 HOST_ARCH=arm64 IFS=' ' LANG=C LANGUAGE=nl_BE:nl LC_ALL=C MACHTYPE=aarch64-unknown-linux-gnu MAIL=/var/mail/root OPTERR=1 OPTIND=1 OSTYPE=linux-gnu PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path PBCURRENTCOMMANDLINEOPERATION=build PBUILDER_OPERATION=build PBUILDER_PKGDATADIR=/usr/share/pbuilder PBUILDER_PKGLIBDIR=/usr/lib/pbuilder PBUILDER_SYSCONFDIR=/etc PIPESTATUS=([0]="0") POSIXLY_CORRECT=y PPID=22138 PS4='+ ' PWD=/ SHELL=/bin/bash SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix SHLVL=3 SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/tmp.Hen0xqWycP/pbuilderrc_Ti1L --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bullseye-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.Hen0xqWycP/b2 --logfile b2/build.log --extrapackages usrmerge fastqtl_2.184+dfsg-7.dsc' SUDO_GID=117 SUDO_UID=110 SUDO_USER=jenkins TERM=unknown TZ=/usr/share/zoneinfo/Etc/GMT-14 UID=0 USER=root USERNAME=root _='I: set' http_proxy=http://192.168.101.16:3128 I: uname -a Linux i-capture-the-hostname 4.15.0-153-generic #160-Ubuntu SMP Thu Jul 29 07:06:07 UTC 2021 aarch64 GNU/Linux I: ls -l /bin total 5252 -rwxr-xr-x 1 root root 1282512 Aug 5 2021 bash -rwxr-xr-x 3 root root 34808 Jul 21 2020 bunzip2 -rwxr-xr-x 3 root root 34808 Jul 21 2020 bzcat lrwxrwxrwx 1 root root 6 Jul 21 2020 bzcmp -> bzdiff -rwxr-xr-x 1 root root 2225 Jul 21 2020 bzdiff lrwxrwxrwx 1 root root 6 Jul 21 2020 bzegrep -> bzgrep -rwxr-xr-x 1 root root 4877 Sep 5 2019 bzexe lrwxrwxrwx 1 root root 6 Jul 21 2020 bzfgrep -> bzgrep -rwxr-xr-x 1 root root 3775 Jul 21 2020 bzgrep -rwxr-xr-x 3 root root 34808 Jul 21 2020 bzip2 -rwxr-xr-x 1 root root 14264 Jul 21 2020 bzip2recover lrwxrwxrwx 1 root root 6 Jul 21 2020 bzless -> bzmore -rwxr-xr-x 1 root root 1297 Jul 21 2020 bzmore -rwxr-xr-x 1 root root 39832 Sep 23 2020 cat -rwxr-xr-x 1 root root 64512 Sep 23 2020 chgrp -rwxr-xr-x 1 root root 60368 Sep 23 2020 chmod -rwxr-xr-x 1 root root 64528 Sep 23 2020 chown -rwxr-xr-x 1 root root 138896 Sep 23 2020 cp -rwxr-xr-x 1 root root 129544 Dec 11 2020 dash -rwxr-xr-x 1 root root 101384 Sep 23 2020 date -rwxr-xr-x 1 root root 80984 Sep 23 2020 dd -rwxr-xr-x 1 root root 89824 Sep 23 2020 df -rwxr-xr-x 1 root root 143088 Sep 23 2020 dir -rwxr-xr-x 1 root root 76152 Jul 29 2021 dmesg lrwxrwxrwx 1 root root 8 Nov 8 2019 dnsdomainname -> hostname lrwxrwxrwx 1 root root 8 Nov 8 2019 domainname -> hostname -rwxr-xr-x 1 root root 35632 Sep 23 2020 echo -rwxr-xr-x 1 root root 28 Nov 10 2020 egrep -rwxr-xr-x 1 root root 31512 Sep 23 2020 false -rwxr-xr-x 1 root root 28 Nov 10 2020 fgrep -rwxr-xr-x 1 root root 64856 Jul 29 2021 findmnt -rwsr-xr-x 1 root root 34824 Feb 27 2021 fusermount -rwxr-xr-x 1 root root 178400 Nov 10 2020 grep -rwxr-xr-x 2 root root 2346 Mar 3 2021 gunzip -rwxr-xr-x 1 root root 6376 Mar 3 2021 gzexe -rwxr-xr-x 1 root root 93744 Mar 3 2021 gzip -rwxr-xr-x 1 root root 18440 Nov 8 2019 hostname -rwxr-xr-x 1 root root 68720 Sep 23 2020 ln -rwxr-xr-x 1 root root 52720 Feb 8 2020 login -rwxr-xr-x 1 root root 143088 Sep 23 2020 ls -rwxr-xr-x 1 root root 161960 Jul 29 2021 lsblk -rwxr-xr-x 1 root root 85200 Sep 23 2020 mkdir -rwxr-xr-x 1 root root 68744 Sep 23 2020 mknod -rwxr-xr-x 1 root root 43976 Sep 23 2020 mktemp -rwxr-xr-x 1 root root 51368 Jul 29 2021 more -rwsr-xr-x 1 root root 51360 Jul 29 2021 mount -rwxr-xr-x 1 root root 14496 Jul 29 2021 mountpoint -rwxr-xr-x 1 root root 134808 Sep 23 2020 mv lrwxrwxrwx 1 root root 8 Nov 8 2019 nisdomainname -> hostname lrwxrwxrwx 1 root root 14 Apr 19 2021 pidof -> /sbin/killall5 -rwxr-xr-x 1 root root 35720 Sep 23 2020 pwd lrwxrwxrwx 1 root root 4 Aug 5 2021 rbash -> bash -rwxr-xr-x 1 root root 43872 Sep 23 2020 readlink -rwxr-xr-x 1 root root 68592 Sep 23 2020 rm -rwxr-xr-x 1 root root 43880 Sep 23 2020 rmdir -rwxr-xr-x 1 root root 19208 Sep 28 2020 run-parts -rwxr-xr-x 1 root root 114016 Dec 23 2018 sed lrwxrwxrwx 1 root root 4 Sep 17 02:08 sh -> bash lrwxrwxrwx 1 root root 4 Sep 15 05:47 sh.distrib -> dash -rwxr-xr-x 1 root root 35656 Sep 23 2020 sleep -rwxr-xr-x 1 root root 72640 Sep 23 2020 stty -rwsr-xr-x 1 root root 67776 Jul 29 2021 su -rwxr-xr-x 1 root root 35672 Sep 23 2020 sync -rwxr-xr-x 1 root root 535768 Feb 17 2021 tar -rwxr-xr-x 1 root root 10568 Sep 28 2020 tempfile -rwxr-xr-x 1 root root 89120 Sep 23 2020 touch -rwxr-xr-x 1 root root 31512 Sep 23 2020 true -rwxr-xr-x 1 root root 14264 Feb 27 2021 ulockmgr_server -rwsr-xr-x 1 root root 30880 Jul 29 2021 umount -rwxr-xr-x 1 root root 35640 Sep 23 2020 uname -rwxr-xr-x 2 root root 2346 Mar 3 2021 uncompress -rwxr-xr-x 1 root root 143088 Sep 23 2020 vdir -rwxr-xr-x 1 root root 59584 Jul 29 2021 wdctl lrwxrwxrwx 1 root root 8 Nov 8 2019 ypdomainname -> hostname -rwxr-xr-x 1 root root 1984 Mar 3 2021 zcat -rwxr-xr-x 1 root root 1678 Mar 3 2021 zcmp -rwxr-xr-x 1 root root 5880 Mar 3 2021 zdiff -rwxr-xr-x 1 root root 29 Mar 3 2021 zegrep -rwxr-xr-x 1 root root 29 Mar 3 2021 zfgrep -rwxr-xr-x 1 root root 2081 Mar 3 2021 zforce -rwxr-xr-x 1 root root 7585 Mar 3 2021 zgrep -rwxr-xr-x 1 root root 2206 Mar 3 2021 zless -rwxr-xr-x 1 root root 1842 Mar 3 2021 zmore -rwxr-xr-x 1 root root 4553 Mar 3 2021 znew I: user script /srv/workspace/pbuilder/22138/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: arm64 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 12), libboost-dev, libboost-iostreams-dev, libboost-program-options-dev, libgsl-dev, r-mathlib, zlib1g-dev, libblas-dev, libeigen3-dev, libhts-dev dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19646 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 12); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on libboost-dev; however: Package libboost-dev is not installed. pbuilder-satisfydepends-dummy depends on libboost-iostreams-dev; however: Package libboost-iostreams-dev is not installed. pbuilder-satisfydepends-dummy depends on libboost-program-options-dev; however: Package libboost-program-options-dev is not installed. pbuilder-satisfydepends-dummy depends on libgsl-dev; however: Package libgsl-dev is not installed. pbuilder-satisfydepends-dummy depends on r-mathlib; however: Package r-mathlib is not installed. pbuilder-satisfydepends-dummy depends on zlib1g-dev; however: Package zlib1g-dev is not installed. pbuilder-satisfydepends-dummy depends on libblas-dev; however: Package libblas-dev is not installed. pbuilder-satisfydepends-dummy depends on libeigen3-dev; however: Package libeigen3-dev is not installed. pbuilder-satisfydepends-dummy depends on libhts-dev; however: Package libhts-dev is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} icu-devtools{a} intltool-debian{a} libarchive-zip-perl{a} libblas-dev{a} libblas3{a} libboost-dev{a} libboost-iostreams-dev{a} libboost-iostreams1.74-dev{a} libboost-program-options-dev{a} libboost-program-options1.74-dev{a} libboost-program-options1.74.0{a} libboost-regex1.74-dev{a} libboost-regex1.74.0{a} libboost1.74-dev{a} libbrotli1{a} libcurl3-gnutls{a} libcurl4-gnutls-dev{a} libdebhelper-perl{a} libdeflate-dev{a} libdeflate0{a} libeigen3-dev{a} libelf1{a} libfile-stripnondeterminism-perl{a} libglib2.0-0{a} libgsl-dev{a} libgsl25{a} libgslcblas0{a} libhts-dev{a} libhts3{a} libicu-dev{a} libicu67{a} libldap-2.4-2{a} liblzma-dev{a} libmagic-mgc{a} libmagic1{a} libnghttp2-14{a} libpipeline1{a} libpsl5{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsigsegv2{a} libssh2-1{a} libsub-override-perl{a} libtool{a} libuchardet0{a} libxml2{a} m4{a} man-db{a} pkg-config{a} po-debconf{a} r-mathlib{a} sensible-utils{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: ca-certificates curl libarchive-cpio-perl libglib2.0-data libldap-common libltdl-dev libmail-sendmail-perl libsasl2-modules lynx publicsuffix r-base-core r-base-dev shared-mime-info wget xdg-user-dirs 0 packages upgraded, 67 newly installed, 0 to remove and 0 not upgraded. Need to get 52.0 MB of archives. After unpacking 309 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian bullseye/main arm64 bsdextrautils arm64 2.36.1-8 [142 kB] Get: 2 http://deb.debian.org/debian bullseye/main arm64 libuchardet0 arm64 0.0.7-1 [67.9 kB] Get: 3 http://deb.debian.org/debian bullseye/main arm64 groff-base arm64 1.22.4-6 [883 kB] Get: 4 http://deb.debian.org/debian bullseye/main arm64 libpipeline1 arm64 1.5.3-1 [33.0 kB] Get: 5 http://deb.debian.org/debian bullseye/main arm64 man-db arm64 2.9.4-2 [1336 kB] Get: 6 http://deb.debian.org/debian bullseye/main arm64 sensible-utils all 0.0.14 [14.8 kB] Get: 7 http://deb.debian.org/debian bullseye/main arm64 libmagic-mgc arm64 1:5.39-3 [273 kB] Get: 8 http://deb.debian.org/debian bullseye/main arm64 libmagic1 arm64 1:5.39-3 [121 kB] Get: 9 http://deb.debian.org/debian bullseye/main arm64 file arm64 1:5.39-3 [69.1 kB] Get: 10 http://deb.debian.org/debian bullseye/main arm64 gettext-base arm64 0.21-4 [173 kB] Get: 11 http://deb.debian.org/debian bullseye/main arm64 libsigsegv2 arm64 2.13-1 [34.7 kB] Get: 12 http://deb.debian.org/debian bullseye/main arm64 m4 arm64 1.4.18-5 [199 kB] Get: 13 http://deb.debian.org/debian bullseye/main arm64 autoconf all 2.69-14 [313 kB] Get: 14 http://deb.debian.org/debian bullseye/main arm64 autotools-dev all 20180224.1+nmu1 [77.1 kB] Get: 15 http://deb.debian.org/debian bullseye/main arm64 automake all 1:1.16.3-2 [814 kB] Get: 16 http://deb.debian.org/debian bullseye/main arm64 autopoint all 0.21-4 [510 kB] Get: 17 http://deb.debian.org/debian bullseye/main arm64 libdebhelper-perl all 13.3.4 [189 kB] Get: 18 http://deb.debian.org/debian bullseye/main arm64 libtool all 2.4.6-15 [513 kB] Get: 19 http://deb.debian.org/debian bullseye/main arm64 dh-autoreconf all 20 [17.1 kB] Get: 20 http://deb.debian.org/debian bullseye/main arm64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 21 http://deb.debian.org/debian bullseye/main arm64 libsub-override-perl all 0.09-2 [10.2 kB] Get: 22 http://deb.debian.org/debian bullseye/main arm64 libfile-stripnondeterminism-perl all 1.12.0-1 [26.3 kB] Get: 23 http://deb.debian.org/debian bullseye/main arm64 dh-strip-nondeterminism all 1.12.0-1 [15.4 kB] Get: 24 http://deb.debian.org/debian bullseye/main arm64 libelf1 arm64 0.183-1 [164 kB] Get: 25 http://deb.debian.org/debian bullseye/main arm64 dwz arm64 0.13+20210201-1 [155 kB] Get: 26 http://deb.debian.org/debian bullseye/main arm64 libicu67 arm64 67.1-7 [8467 kB] Get: 27 http://deb.debian.org/debian bullseye/main arm64 libxml2 arm64 2.9.10+dfsg-6.7 [629 kB] Get: 28 http://deb.debian.org/debian bullseye/main arm64 gettext arm64 0.21-4 [1261 kB] Get: 29 http://deb.debian.org/debian bullseye/main arm64 intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get: 30 http://deb.debian.org/debian bullseye/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 31 http://deb.debian.org/debian bullseye/main arm64 debhelper all 13.3.4 [1049 kB] Get: 32 http://deb.debian.org/debian bullseye/main arm64 icu-devtools arm64 67.1-7 [189 kB] Get: 33 http://deb.debian.org/debian bullseye/main arm64 libblas3 arm64 3.9.0-3 [101 kB] Get: 34 http://deb.debian.org/debian bullseye/main arm64 libblas-dev arm64 3.9.0-3 [107 kB] Get: 35 http://deb.debian.org/debian bullseye/main arm64 libboost1.74-dev arm64 1.74.0-9 [9534 kB] Get: 36 http://deb.debian.org/debian bullseye/main arm64 libboost-dev arm64 1.74.0.3 [4548 B] Get: 37 http://deb.debian.org/debian bullseye/main arm64 libboost-regex1.74.0 arm64 1.74.0-9 [473 kB] Get: 38 http://deb.debian.org/debian bullseye/main arm64 libicu-dev arm64 67.1-7 [9468 kB] Get: 39 http://deb.debian.org/debian bullseye/main arm64 libboost-regex1.74-dev arm64 1.74.0-9 [549 kB] Get: 40 http://deb.debian.org/debian bullseye/main arm64 libboost-iostreams1.74-dev arm64 1.74.0-9 [272 kB] Get: 41 http://deb.debian.org/debian bullseye/main arm64 libboost-iostreams-dev arm64 1.74.0.3 [4316 B] Get: 42 http://deb.debian.org/debian bullseye/main arm64 libboost-program-options1.74.0 arm64 1.74.0-9 [344 kB] Get: 43 http://deb.debian.org/debian bullseye/main arm64 libboost-program-options1.74-dev arm64 1.74.0-9 [382 kB] Get: 44 http://deb.debian.org/debian bullseye/main arm64 libboost-program-options-dev arm64 1.74.0.3 [4340 B] Get: 45 http://deb.debian.org/debian bullseye/main arm64 libbrotli1 arm64 1.0.9-2+b2 [267 kB] Get: 46 http://deb.debian.org/debian bullseye/main arm64 libsasl2-modules-db arm64 2.1.27+dfsg-2.1 [69.3 kB] Get: 47 http://deb.debian.org/debian bullseye/main arm64 libsasl2-2 arm64 2.1.27+dfsg-2.1 [105 kB] Get: 48 http://deb.debian.org/debian bullseye/main arm64 libldap-2.4-2 arm64 2.4.57+dfsg-3 [222 kB] Get: 49 http://deb.debian.org/debian bullseye/main arm64 libnghttp2-14 arm64 1.43.0-1 [73.8 kB] Get: 50 http://deb.debian.org/debian bullseye/main arm64 libpsl5 arm64 0.21.0-1.2 [57.1 kB] Get: 51 http://deb.debian.org/debian bullseye/main arm64 librtmp1 arm64 2.4+20151223.gitfa8646d.1-2+b2 [59.4 kB] Get: 52 http://deb.debian.org/debian bullseye/main arm64 libssh2-1 arm64 1.9.0-2 [150 kB] Get: 53 http://deb.debian.org/debian bullseye/main arm64 libcurl3-gnutls arm64 7.74.0-1.3+b1 [318 kB] Get: 54 http://deb.debian.org/debian bullseye/main arm64 libcurl4-gnutls-dev arm64 7.74.0-1.3+b1 [419 kB] Get: 55 http://deb.debian.org/debian bullseye/main arm64 libdeflate0 arm64 1.7-1 [47.7 kB] Get: 56 http://deb.debian.org/debian bullseye/main arm64 libdeflate-dev arm64 1.7-1 [44.5 kB] Get: 57 http://deb.debian.org/debian bullseye/main arm64 libglib2.0-0 arm64 2.66.8-1 [1286 kB] Get: 58 http://deb.debian.org/debian bullseye/main arm64 pkg-config arm64 0.29.2-1 [63.6 kB] Get: 59 http://deb.debian.org/debian bullseye/main arm64 libeigen3-dev all 3.3.9-2 [858 kB] Get: 60 http://deb.debian.org/debian bullseye/main arm64 libgslcblas0 arm64 2.6+dfsg-2 [73.4 kB] Get: 61 http://deb.debian.org/debian bullseye/main arm64 libgsl25 arm64 2.6+dfsg-2 [812 kB] Get: 62 http://deb.debian.org/debian bullseye/main arm64 libgsl-dev arm64 2.6+dfsg-2 [1006 kB] Get: 63 http://deb.debian.org/debian bullseye/main arm64 libhts3 arm64 1.11-4 [346 kB] Get: 64 http://deb.debian.org/debian bullseye/main arm64 liblzma-dev arm64 5.2.5-2 [227 kB] Get: 65 http://deb.debian.org/debian bullseye/main arm64 zlib1g-dev arm64 1:1.2.11.dfsg-2 [189 kB] Get: 66 http://deb.debian.org/debian bullseye/main arm64 libhts-dev arm64 1.11-4 [3856 kB] Get: 67 http://deb.debian.org/debian bullseye/main arm64 r-mathlib arm64 4.0.4-1 [2074 kB] Fetched 52.0 MB in 1s (44.2 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package bsdextrautils. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19646 files and directories currently installed.) Preparing to unpack .../00-bsdextrautils_2.36.1-8_arm64.deb ... Unpacking bsdextrautils (2.36.1-8) ... Selecting previously unselected package libuchardet0:arm64. Preparing to unpack .../01-libuchardet0_0.0.7-1_arm64.deb ... Unpacking libuchardet0:arm64 (0.0.7-1) ... Selecting previously unselected package groff-base. Preparing to unpack .../02-groff-base_1.22.4-6_arm64.deb ... 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Setting up libpsl5:arm64 (0.21.0-1.2) ... Setting up libboost1.74-dev:arm64 (1.74.0-9) ... Setting up bsdextrautils (2.36.1-8) ... update-alternatives: using /usr/bin/write.ul to provide /usr/bin/write (write) in auto mode Setting up libicu67:arm64 (67.1-7) ... Setting up libgslcblas0:arm64 (2.6+dfsg-2) ... Setting up libmagic-mgc (1:5.39-3) ... Setting up libgsl25:arm64 (2.6+dfsg-2) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libglib2.0-0:arm64 (2.66.8-1) ... No schema files found: doing nothing. Setting up libboost-program-options1.74.0:arm64 (1.74.0-9) ... Setting up libdebhelper-perl (13.3.4) ... Setting up libbrotli1:arm64 (1.0.9-2+b2) ... Setting up libnghttp2-14:arm64 (1.43.0-1) ... Setting up libmagic1:arm64 (1:5.39-3) ... Setting up libdeflate0:arm64 (1.7-1) ... Setting up gettext-base (0.21-4) ... Setting up file (1:5.39-3) ... Setting up libboost-program-options1.74-dev:arm64 (1.74.0-9) ... Setting up libsasl2-modules-db:arm64 (2.1.27+dfsg-2.1) ... Setting up autotools-dev (20180224.1+nmu1) ... Setting up libblas3:arm64 (3.9.0-3) ... update-alternatives: using /usr/lib/aarch64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/aarch64-linux-gnu/libblas.so.3 (libblas.so.3-aarch64-linux-gnu) in auto mode Setting up libboost-program-options-dev:arm64 (1.74.0.3) ... Setting up librtmp1:arm64 (2.4+20151223.gitfa8646d.1-2+b2) ... Setting up libsigsegv2:arm64 (2.13-1) ... Setting up libboost-regex1.74.0:arm64 (1.74.0-9) ... Setting up autopoint (0.21-4) ... Setting up icu-devtools (67.1-7) ... Setting up pkg-config (0.29.2-1) ... Setting up libsasl2-2:arm64 (2.1.27+dfsg-2.1) ... Setting up liblzma-dev:arm64 (5.2.5-2) ... Setting up zlib1g-dev:arm64 (1:1.2.11.dfsg-2) ... Setting up sensible-utils (0.0.14) ... Setting up libuchardet0:arm64 (0.0.7-1) ... Setting up r-mathlib (4.0.4-1) ... Setting up libsub-override-perl (0.09-2) ... Setting up libssh2-1:arm64 (1.9.0-2) ... Setting up libboost-dev:arm64 (1.74.0.3) ... Setting up libdeflate-dev:arm64 (1.7-1) ... Setting up libelf1:arm64 (0.183-1) ... Setting up libicu-dev:arm64 (67.1-7) ... Setting up libxml2:arm64 (2.9.10+dfsg-6.7) ... Setting up libblas-dev:arm64 (3.9.0-3) ... update-alternatives: using /usr/lib/aarch64-linux-gnu/blas/libblas.so to provide /usr/lib/aarch64-linux-gnu/libblas.so (libblas.so-aarch64-linux-gnu) in auto mode Setting up libfile-stripnondeterminism-perl (1.12.0-1) ... Setting up gettext (0.21-4) ... Setting up libgsl-dev (2.6+dfsg-2) ... Setting up libtool (2.4.6-15) ... Setting up libldap-2.4-2:arm64 (2.4.57+dfsg-3) ... Setting up m4 (1.4.18-5) ... Setting up libcurl3-gnutls:arm64 (7.74.0-1.3+b1) ... Setting up libcurl4-gnutls-dev:arm64 (7.74.0-1.3+b1) ... Setting up intltool-debian (0.35.0+20060710.5) ... Setting up libeigen3-dev (3.3.9-2) ... Setting up autoconf (2.69-14) ... Setting up dh-strip-nondeterminism (1.12.0-1) ... Setting up dwz (0.13+20210201-1) ... Setting up libboost-regex1.74-dev:arm64 (1.74.0-9) ... Setting up groff-base (1.22.4-6) ... Setting up automake (1:1.16.3-2) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libhts3:arm64 (1.11-4) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libhts-dev:arm64 (1.11-4) ... Setting up man-db (2.9.4-2) ... Not building database; man-db/auto-update is not 'true'. Setting up libboost-iostreams1.74-dev:arm64 (1.74.0-9) ... Setting up dh-autoreconf (20) ... Setting up debhelper (13.3.4) ... Setting up libboost-iostreams-dev:arm64 (1.74.0.3) ... Processing triggers for libc-bin (2.31-13) ... Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps Reading package lists... Building dependency tree... Reading state information... fakeroot is already the newest version (1.25.3-1.1). The following additional packages will be installed: libfile-find-rule-perl libnumber-compare-perl libtext-glob-perl The following NEW packages will be installed: libfile-find-rule-perl libnumber-compare-perl libtext-glob-perl usrmerge 0 upgraded, 4 newly installed, 0 to remove and 0 not upgraded. Need to get 59.5 kB of archives. After this operation, 157 kB of additional disk space will be used. Get:1 http://deb.debian.org/debian bullseye/main arm64 libnumber-compare-perl all 0.03-1.1 [6956 B] Get:2 http://deb.debian.org/debian bullseye/main arm64 libtext-glob-perl all 0.11-1 [8888 B] Get:3 http://deb.debian.org/debian bullseye/main arm64 libfile-find-rule-perl all 0.34-1 [30.6 kB] Get:4 http://deb.debian.org/debian bullseye/main arm64 usrmerge all 25 [13.0 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 59.5 kB in 0s (917 kB/s) Selecting previously unselected package libnumber-compare-perl. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 38518 files and directories currently installed.) Preparing to unpack .../libnumber-compare-perl_0.03-1.1_all.deb ... Unpacking libnumber-compare-perl (0.03-1.1) ... Selecting previously unselected package libtext-glob-perl. Preparing to unpack .../libtext-glob-perl_0.11-1_all.deb ... Unpacking libtext-glob-perl (0.11-1) ... Selecting previously unselected package libfile-find-rule-perl. Preparing to unpack .../libfile-find-rule-perl_0.34-1_all.deb ... Unpacking libfile-find-rule-perl (0.34-1) ... Selecting previously unselected package usrmerge. Preparing to unpack .../archives/usrmerge_25_all.deb ... Unpacking usrmerge (25) ... Setting up libtext-glob-perl (0.11-1) ... Setting up libnumber-compare-perl (0.03-1.1) ... Setting up libfile-find-rule-perl (0.34-1) ... Setting up usrmerge (25) ... The system has been successfully converted. Processing triggers for man-db (2.9.4-2) ... Not building database; man-db/auto-update is not 'true'. I: Building the package hostname: Temporary failure in name resolution I: Running cd /build/fastqtl-2.184+dfsg/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-genchanges -S > ../fastqtl_2.184+dfsg-7_source.changes dpkg-buildpackage: info: source package fastqtl dpkg-buildpackage: info: source version 2.184+dfsg-7 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-source --before-build . dpkg-buildpackage: info: host architecture arm64 fakeroot debian/rules clean dh clean dh_auto_clean make -j8 clean make[1]: Entering directory '/build/fastqtl-2.184+dfsg' rm -f obj/*.o bin/fastQTL make[1]: Leaving directory '/build/fastqtl-2.184+dfsg' dh_clean debian/rules build dh build dh_update_autotools_config dh_autoreconf dh_auto_configure debian/rules override_dh_auto_build make[1]: Entering directory '/build/fastqtl-2.184+dfsg' mkdir -p /build/fastqtl-2.184+dfsg/obj/ mkdir -p /build/fastqtl-2.184+dfsg/bin/ dh_auto_build -- CXXFLAGS='-g -fdebug-prefix-map=/build/fastqtl-2.184+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security' make -j8 "INSTALL=install --strip-program=true" "CXXFLAGS=-g -fdebug-prefix-map=/build/fastqtl-2.184+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security" make[2]: Entering directory '/build/fastqtl-2.184+dfsg' g++ -O3 -D_FAST_CORRELATION -Wall -Wextra -Wno-sign-compare -g -fdebug-prefix-map=/build/fastqtl-2.184+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o obj/analysisMapping.o -c src/analysisMapping.cpp -Isrc g++ -O3 -D_FAST_CORRELATION -Wall -Wextra -Wno-sign-compare -g -fdebug-prefix-map=/build/fastqtl-2.184+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o obj/analysisNominal.o -c src/analysisNominal.cpp -Isrc g++ -O3 -D_FAST_CORRELATION -Wall -Wextra -Wno-sign-compare -g -fdebug-prefix-map=/build/fastqtl-2.184+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o obj/analysisPermutation.o -c src/analysisPermutation.cpp -Isrc g++ -O3 -D_FAST_CORRELATION -Wall -Wextra -Wno-sign-compare -g -fdebug-prefix-map=/build/fastqtl-2.184+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o obj/analysisPermutationInteraction.o -c src/analysisPermutationInteraction.cpp -Isrc g++ -O3 -D_FAST_CORRELATION -Wall -Wextra -Wno-sign-compare -g -fdebug-prefix-map=/build/fastqtl-2.184+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o obj/analysisPermutationPerGroup.o -c src/analysisPermutationPerGroup.cpp -Isrc g++ -O3 -D_FAST_CORRELATION -Wall -Wextra -Wno-sign-compare -g -fdebug-prefix-map=/build/fastqtl-2.184+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o obj/analysisPermutationSequence.o -c src/analysisPermutationSequence.cpp -Isrc g++ -O3 -D_FAST_CORRELATION -Wall -Wextra -Wno-sign-compare -g -fdebug-prefix-map=/build/fastqtl-2.184+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o obj/commands.o -c src/commands.cpp -Isrc g++ -O3 -D_FAST_CORRELATION -Wall -Wextra -Wno-sign-compare -g -fdebug-prefix-map=/build/fastqtl-2.184+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o obj/df.o -c src/df.cpp -Isrc g++ -O3 -D_FAST_CORRELATION -Wall -Wextra -Wno-sign-compare -g -fdebug-prefix-map=/build/fastqtl-2.184+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o obj/fastQTL.o -c src/fastQTL.cpp -Isrc In file included from src/analysisPermutation.cpp:17: src/data.h: In member function 'double data::getCorrelation(std::vector&, std::vector&)': src/data.h:170:15: warning: this statement may fall through [-Wimplicit-fallthrough=] 170 | case 3: sum0 += vec1[i+2] * vec2[i+2]; src/data.h:171:2: note: here 171 | case 2: sum0 += vec1[i+1] * vec2[i+1]; | ^~~~ src/data.h:171:15: warning: this statement may fall through [-Wimplicit-fallthrough=] 171 | case 2: sum0 += vec1[i+1] * vec2[i+1]; src/data.h:172:2: note: here 172 | case 1: sum0 += vec1[i+0] * vec2[i+0]; | ^~~~ In file included from src/analysisPermutationInteraction.cpp:17: src/data.h: In member function 'double data::getCorrelation(std::vector&, std::vector&)': src/data.h:170:15: warning: this statement may fall through [-Wimplicit-fallthrough=] 170 | case 3: sum0 += vec1[i+2] * vec2[i+2]; src/data.h:171:2: note: here 171 | case 2: sum0 += vec1[i+1] * vec2[i+1]; | ^~~~ src/data.h:171:15: warning: this statement may fall through [-Wimplicit-fallthrough=] 171 | case 2: sum0 += vec1[i+1] * vec2[i+1]; src/data.h:172:2: note: here 172 | case 1: sum0 += vec1[i+0] * vec2[i+0]; | ^~~~ In file included from src/analysisPermutationPerGroup.cpp:17: src/data.h: In member function 'double data::getCorrelation(std::vector&, std::vector&)': src/data.h:170:15: warning: this statement may fall through [-Wimplicit-fallthrough=] 170 | case 3: sum0 += vec1[i+2] * vec2[i+2]; src/data.h:171:2: note: here 171 | case 2: sum0 += vec1[i+1] * vec2[i+1]; | ^~~~ src/data.h:171:15: warning: this statement may fall through [-Wimplicit-fallthrough=] 171 | case 2: sum0 += vec1[i+1] * vec2[i+1]; src/data.h:172:2: note: here 172 | case 1: sum0 += vec1[i+0] * vec2[i+0]; | ^~~~ In file included from src/analysisPermutationSequence.cpp:17: src/data.h: In member function 'double data::getCorrelation(std::vector&, std::vector&)': src/data.h:170:15: warning: this statement may fall through [-Wimplicit-fallthrough=] 170 | case 3: sum0 += vec1[i+2] * vec2[i+2]; src/data.h:171:2: note: here 171 | case 2: sum0 += vec1[i+1] * vec2[i+1]; | ^~~~ src/data.h:171:15: warning: this statement may fall through [-Wimplicit-fallthrough=] 171 | case 2: sum0 += vec1[i+1] * vec2[i+1]; src/data.h:172:2: note: here 172 | case 1: sum0 += vec1[i+0] * vec2[i+0]; | ^~~~ In file included from src/analysisNominal.cpp:17: src/data.h: In member function 'double data::getCorrelation(std::vector&, std::vector&)': src/data.h:170:15: warning: this statement may fall through [-Wimplicit-fallthrough=] 170 | case 3: sum0 += vec1[i+2] * vec2[i+2]; src/data.h:171:2: note: here 171 | case 2: sum0 += vec1[i+1] * vec2[i+1]; | ^~~~ src/data.h:171:15: warning: this statement may fall through [-Wimplicit-fallthrough=] 171 | case 2: sum0 += vec1[i+1] * vec2[i+1]; src/data.h:172:2: note: here 172 | case 1: sum0 += vec1[i+0] * vec2[i+0]; | ^~~~ g++ -O3 -D_FAST_CORRELATION -Wall -Wextra -Wno-sign-compare -g -fdebug-prefix-map=/build/fastqtl-2.184+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o obj/management.o -c src/management.cpp -Isrc In file included from src/analysisMapping.cpp:17: src/data.h: In member function 'double data::getCorrelation(std::vector&, std::vector&)': src/data.h:170:15: warning: this statement may fall through [-Wimplicit-fallthrough=] 170 | case 3: sum0 += vec1[i+2] * vec2[i+2]; src/data.h:171:2: note: here 171 | case 2: sum0 += vec1[i+1] * vec2[i+1]; | ^~~~ src/data.h:171:15: warning: this statement may fall through [-Wimplicit-fallthrough=] 171 | case 2: sum0 += vec1[i+1] * vec2[i+1]; src/data.h:172:2: note: here 172 | case 1: sum0 += vec1[i+0] * vec2[i+0]; | ^~~~ g++ -O3 -D_FAST_CORRELATION -Wall -Wextra -Wno-sign-compare -g -fdebug-prefix-map=/build/fastqtl-2.184+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o obj/mle.o -c src/mle.cpp -Isrc g++ -O3 -D_FAST_CORRELATION -Wall -Wextra -Wno-sign-compare -g -fdebug-prefix-map=/build/fastqtl-2.184+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o obj/readCovariates.o -c src/readCovariates.cpp -Isrc g++ -O3 -D_FAST_CORRELATION -Wall -Wextra -Wno-sign-compare -g -fdebug-prefix-map=/build/fastqtl-2.184+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o obj/readGenotypes.o -c src/readGenotypes.cpp -Isrc g++ -O3 -D_FAST_CORRELATION -Wall -Wextra -Wno-sign-compare -g -fdebug-prefix-map=/build/fastqtl-2.184+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o obj/readGroups.o -c src/readGroups.cpp -Isrc g++ -O3 -D_FAST_CORRELATION -Wall -Wextra -Wno-sign-compare -g -fdebug-prefix-map=/build/fastqtl-2.184+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o obj/readInclusionsExclusions.o -c src/readInclusionsExclusions.cpp -Isrc g++ -O3 -D_FAST_CORRELATION -Wall -Wextra -Wno-sign-compare -g -fdebug-prefix-map=/build/fastqtl-2.184+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o obj/readInteractions.o -c src/readInteractions.cpp -Isrc In file included from src/management.cpp:20: src/data.h: In member function 'double data::getCorrelation(std::vector&, std::vector&)': src/data.h:170:15: warning: this statement may fall through [-Wimplicit-fallthrough=] 170 | case 3: sum0 += vec1[i+2] * vec2[i+2]; src/data.h:171:2: note: here 171 | case 2: sum0 += vec1[i+1] * vec2[i+1]; | ^~~~ src/data.h:171:15: warning: this statement may fall through [-Wimplicit-fallthrough=] 171 | case 2: sum0 += vec1[i+1] * vec2[i+1]; src/data.h:172:2: note: here 172 | case 1: sum0 += vec1[i+0] * vec2[i+0]; | ^~~~ g++ -O3 -D_FAST_CORRELATION -Wall -Wextra -Wno-sign-compare -g -fdebug-prefix-map=/build/fastqtl-2.184+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o obj/readPhenotypes.o -c src/readPhenotypes.cpp -Isrc g++ -O3 -D_FAST_CORRELATION -Wall -Wextra -Wno-sign-compare -g -fdebug-prefix-map=/build/fastqtl-2.184+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o obj/readThresholds.o -c src/readThresholds.cpp -Isrc g++ -O3 -D_FAST_CORRELATION -Wall -Wextra -Wno-sign-compare -g -fdebug-prefix-map=/build/fastqtl-2.184+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o obj/residualizer.o -c src/residualizer.cpp -Isrc g++ -O3 -D_FAST_CORRELATION -Wall -Wextra -Wno-sign-compare -g -fdebug-prefix-map=/build/fastqtl-2.184+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o obj/tabix.o -c src/utils/tabix.cpp -Isrc src/utils/tabix.cpp: In constructor 'Tabix::Tabix(std::string&)': src/utils/tabix.cpp:17:32: warning: 'int bgzf_is_bgzf(const char*)' is deprecated: Use bgzf_compression() or hts_detect_format() instead [-Wdeprecated-declarations] 17 | if ( bgzf_is_bgzf(cfilename)!=1 ) | ^ In file included from src/utils/tabix.hpp:12, from src/utils/tabix.cpp:6: /usr/include/htslib/bgzf.h:263:9: note: declared here 263 | int bgzf_is_bgzf(const char *fn) HTS_DEPRECATED("Use bgzf_compression() or hts_detect_format() instead"); | ^~~~~~~~~~~~ g++ -O3 -D_FAST_CORRELATION -Wall -Wextra -Wno-sign-compare -g -fdebug-prefix-map=/build/fastqtl-2.184+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o obj/utils.o -c src/utils/utils.cpp -Isrc g++ -O3 -Wl,-z,relro -Wl,-z,now obj/analysisMapping.o obj/analysisNominal.o obj/analysisPermutation.o obj/analysisPermutationInteraction.o obj/analysisPermutationPerGroup.o obj/analysisPermutationSequence.o obj/commands.o obj/df.o obj/fastQTL.o obj/management.o obj/mle.o obj/readCovariates.o obj/readGenotypes.o obj/readGroups.o obj/readInclusionsExclusions.o obj/readInteractions.o obj/readPhenotypes.o obj/readThresholds.o obj/residualizer.o obj/tabix.o obj/utils.o -lRmath -lhts -lm -lz -lboost_iostreams -lboost_program_options -lgsl -lblas -o bin/fastQTL make[2]: Leaving directory '/build/fastqtl-2.184+dfsg' cd /build/fastqtl-2.184+dfsg/example/ && \ tar Jcvf examples.tar.xz * --sort=name --mode=go=rX,u+rw,a-s --owner=root --group=root --numeric-owner covariates.txt.gz genotypes.vcf.gz genotypes.vcf.gz.tbi interaction.txt phenotypes.bed.gz phenotypes.bed.gz.tbi make[1]: Leaving directory '/build/fastqtl-2.184+dfsg' dh_auto_test create-stamp debian/debhelper-build-stamp fakeroot debian/rules binary dh binary dh_testroot dh_prep dh_auto_install dh_install dh_installdocs dh_installchangelogs dh_installman dh_lintian dh_perl dh_link dh_strip_nondeterminism dh_compress dh_fixperms dh_missing dh_dwz dh_strip dh_makeshlibs dh_shlibdeps dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/fastqtl/usr/bin/fastQTL was not linked against libblas.so.3 (it uses none of the library's symbols) dh_installdeb dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'fastqtl' in '../fastqtl_2.184+dfsg-7_arm64.deb'. dpkg-deb: building package 'fastqtl-doc' in '../fastqtl-doc_2.184+dfsg-7_all.deb'. dpkg-deb: building package 'fastqtl-dbgsym' in '../fastqtl-dbgsym_2.184+dfsg-7_arm64.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary >../fastqtl_2.184+dfsg-7_arm64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration I: user script /srv/workspace/pbuilder/22138/tmp/hooks/B01_cleanup starting I: user script /srv/workspace/pbuilder/22138/tmp/hooks/B01_cleanup finished I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/22138 and its subdirectories I: Current time: Sat Sep 17 02:14:40 +14 2022 I: pbuilder-time-stamp: 1663330480